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Series GSE56398 Query DataSets for GSE56398
Status Public on Oct 04, 2016
Title Increased response to nicotine in human dopaminergic neurons derived from iPSC carrying the risk-associated SNP rs16969968
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Many addictive drugs such as nicotine mediate reward and reinforcing mechanisms within the mesolimbic pathway involving midbrain dopaminergic (mDA) neurons via nicotinic acetylcholine receptors (nAChRs). Previously, genome-wide association analyses (GWAs) identified several nucleotide polymorphism (SNP) associated with increased risk of addictive phenotypes including the nonsynonymous rs16969968 SNP encoding D398->N398 variation in the CHRNA5 gene (Bierut et al., 2008; Saccone et al., 2007) . However, the etiology and the pathophysiology associated with the N398 allele is unknown. Previous animal studies using a knock-in of human CHRNA5 N398 revealed increased nicotine consumption. However, given the evolutionary distance between mice and humans, identifying intrinsic factors that affect addiction may correlate poorly, limiting the conclusiveness of these studies. In this study, induced pluripotent stem cell (iPSC) lines were derived from cryopreserved lymphocytes drawn from patients with homozygous minor alleles (N398) of rs16969968 and demonstrated nicotine addiction as well as age- and gender-matched unaffected controls carrying the major allele (D398). Cultures of primarily mDA neurons were prepared from these iPSC lines. Gene expression analysis using RT-PCR and RNAseq revealed similar expression of mRNAs encoding subunits of nAChR in mDA neurons derived from both D398 and N398 iPSC lines, however, gene ontology (GO) analysis revealed an increased enrichment of genes associated with neuroactive ligand-receptor interactions and Ca2+ signaling pathways in N398 neurons. Moreover, the N398 neuronal population responded more actively to application of nicotine in both electrophysiological analysis and Ca2+-imaging analysis. Together, these results suggest that the N398 variation affects Ca2+-signaling in neurons, which may explain the predisposition of subjects carrying this mutation for addictive behavior in subjects carrying the nonsynonymous rs16969968 SNP (Sherva et al., 2008).
Overall design Three samples of midbrain dopaminergic (mDA) cultures derived from iPSC were prepared from a human iPSC line carrying homozygous major allele for rs16969968 (D398) and three samples from iPSC line carrying the homozygous minor allele (N398) were compared. As a control for differentiation, four samples of CD4+ T-cell-derived iPSC, reprogrammed using Sendai viral vectors, were prepared from two different cell lines at multiple passages.
Web link
Contributor(s) Hart RP, Pang Z, Oni E, Swerdel MR, Toro-Ramos AJ
Citation(s) 27698409
BioProject PRJNA242196
Submission date Apr 01, 2014
Last update date May 15, 2019
Contact name Ronald P. Hart
Phone 848-445-1783
Organization name Rutgers University
Department Cell Biology & Neuroscience
Street address 604 Allison Rd Rm B430
City Piscataway
State/province NJ
ZIP/Postal code 08854
Country USA
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (10)
GSM1360866 D398_0
GSM1360867 D398_1
GSM1360868 D398_2
SRA SRP040275

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE56398_nic-fpkmMatrix.txt.gz 714.2 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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